Skip to main content
SpringerLink
Log in

The complete genome sequence of polygonum ringspot virus

  • Annotated Sequence Record
  • Published:
Archives of Virology Aims and scope Submit manuscript

Abstract

The complete genome sequence of polygonum ringspot virus (PolRSV), genus Tospovirus, family Bunyaviridae, was determined. This is the first report of the complete genome sequence for a European tospovirus isolate. The large RNA of PolRSV was 8893 nucleotides (nt) in size and contained a single open reading frame of 8628 nucleotides in the viral-complementary sense, coding for a predicted RNA-dependent RNA polymerase of 330.9 kDa. Two untranslated regions of 230 and 32 nucleotides were present at the 5′ and 3′ termini, respectively, which showed conserved terminal sequences, as commonly observed for tospovirus genomic RNAs. The medium and small (S) RNAs were 4710 and 2485 nucleotides in size, respectively, and showed 99 % homology to the corresponding genomic segment of a previously partially characterized PolRSV isolate, Plg3. Protein sequences for GN/GC, N and NSs were identical in length in the two PolRSV isolates, while an amino acid insertion was observed for the NSm protein of the newly characterized isolate. The noncoding intergenic region of the S RNA was very short (183 nt) and was not predicted to form a hairpin structure, confirming that this unique characteristic within tospoviruses, previously observed for Plg3, is not isolate specific.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2

Similar content being viewed by others

References

  1. Goldbach R, Peters D (1996) Molecular and biological aspects of tospoviruses. In: Elliot RM (ed) The Bunyaviridae. Plenum Press, New York, pp 129–157

    Google Scholar 

  2. Plyusnin A, Beaty BJ, Elliott RM, Goldbach R, Kormelink R, Lundkvist A, Schmaljohn CS, Tesh RB (2012) Bunyaviridae. In: King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ (eds) Virus taxonomy: ninth report of the international committee on taxonomy of viruses. Elsevier Academic Press, San Diego, pp 737–739

    Google Scholar 

  3. Shimomoto Y, Kobayashi K, Okuda M (2014) Identification and characterization of Lisianthus necrotic ringspot virus, a novel distinct Tospovirus species causing necrotic disease of lisianthus (Eustoma grandiflorum). J Gen Plant Pathol 80:169–175

    Article  Google Scholar 

  4. Pappu HR, Jones RAC, Jain RK (2009) Global status of tospovirus epidemics in diverse cropping systems: successes achieved and challenges ahead. Virus Res 141:219–236

    Article  PubMed  CAS  Google Scholar 

  5. Tsompana M, Moyer JW (2008) Tospoviruses. In: Mahy BWJ, Van Regenmortel MHV (eds) Encyclopedia of virology, vol 5, 3rd edn. Elsevier, Oxford, pp 157–162

    Chapter  Google Scholar 

  6. Whitfield AE, Ullman DE, German TL (2005) Tospovirus–thrips interactions. Annu Rev Phytopathol 43:459–489

    Article  PubMed  CAS  Google Scholar 

  7. Ciuffo M, Tavella L, Pacifico D, Masenga V, Turina M (2008) A member of a new Tospovirus species isolated in Italy from wild buckwheat (Polygonum convolvulus). Arch Virol 153:2059–2068

    Article  PubMed  CAS  Google Scholar 

  8. Turina M, Tavella L, Ciuffo M (2012) Tospoviruses in the Mediterranean area. In: Loebenstein G, Lecoq H (eds) Viruses and virus diseases of vegetables in the Mediterranean basin-advances in virus research, vol 84. Elsevier Academic Press Inc, San Diego, pp 403–437

    Chapter  Google Scholar 

  9. Ciuffo M, Mautino GC, Bosco L, Turina M, Tavella L (2010) Identification of Dictyothrips betae as the vector of Polygonum ring spot virus. Ann Appl Biol 157:299–307

    Article  CAS  Google Scholar 

  10. Grabherr MG, Haas BJ, Yassour M, Levin JZ, Thompson DA, Amit I, Adiconis X, Fan L, Raychowdhury R, Zeng Q, Chen Z, Mauceli E, Hacohen N, Gnirke A, Rhind N, di Palma F, Birren BW, Nusbaum C, Lindblad-Toh K, Friedman N, Regev A (2011) Full-length transcriptome assembly from RNA-seq data without a reference genome. Nat Biotechnol 29:644–652

    Article  PubMed  CAS  PubMed Central  Google Scholar 

  11. Xu Y, Lou S, Li X, Zheng Y, Wang W, Liu Y (2013) The complete S RNA and M RNA nucleotide sequences of a Hippeastrum chlorotic ringspot virus (HCRV) isolate from Hymenocallis littoralis (Jacq.) Salisb in China. Arch Virol 158:2597–2601

    Article  PubMed  CAS  Google Scholar 

  12. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599

    Article  PubMed  CAS  Google Scholar 

  13. De Oliveira AS, Melo FL, Inoue-Nagata AK, Nagata T, Kitajima EW, De Oliveira Resende R (2012) Characterization of Bean necrotic mosaic virus: a member of a novel evolutionary lineage within the genus Tospovirus. PLoS One 7(6):e38634

    Article  PubMed  PubMed Central  Google Scholar 

Download references

Conflict of interest

The authors declare that they have no conflict of interest.

Author information

Authors and Affiliations

  1. Istituto di Virologia Vegetale, Sez. di Torino, CNR, Strada delle Cacce 73, 10135, Turin, Italy

    P. Margaria, L. Miozzi, M. Ciuffo & M. Turina

  2. Department of Plant Pathology, Washington State University, PO Box 646430, Pullman, WA, 99162, USA

    H. Pappu

Authors
  1. P. Margaria
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. L. Miozzi
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. M. Ciuffo
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. H. Pappu
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. M. Turina
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to M. Turina.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (PDF 69 kb)

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Margaria, P., Miozzi, L., Ciuffo, M. et al. The complete genome sequence of polygonum ringspot virus. Arch Virol 159, 3149–3152 (2014). https://doi.org/10.1007/s00705-014-2166-4

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00705-014-2166-4

Keywords

Search

Navigation